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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGCGATAGGGATTCATCATCGGAGTCTGATCGGTCTCACCAAGAAGCATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttctttatctccaaccacattatcagttatatatatttttacaccgttggcattggaacacagcttcattttaagtttacttcacaagaaatgtta...

Basic information

species Zea mays
transcript GRMZM2G040349_T01
intron # 3
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211338110|gb|FL126023.1|FL126023
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAA
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAA
EST: gi|211338111|gb|FL126024.1|FL126024
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATTATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|149028984|gb|EE286170.2|EE286170
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|89762792|gb|DY690244.1|DY690244
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211340500|gb|FL126029.1|FL126029
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211340498|gb|FL126027.1|FL126027
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211338112|gb|FL126025.1|FL126025
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|76012499|gb|DT939669.1|DT939669
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|50333900|gb|CO529026.1|CO529026
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|30088407|gb|CB886612.1|CB886612
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|76015258|gb|DT942428.1|DT942428
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211338108|gb|FL126021.1|FL126021
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|78108019|gb|DV526437.1|DV526437
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|116816005|gb|EC858705.1|EC858705
EST:     ATCAGCAGCACGTGAAAGCAGCCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|31359967|gb|CD444324.1|CD444324
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211340497|gb|FL126026.1|FL126026
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|211338109|gb|FL126022.1|FL126022
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|91057234|gb|EB167652.1|EB167652
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
EST: gi|74233446|gb|DT641360.1|DT641360
EST:     ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAG                         ACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT
genomic: ATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttcttt ... ttgtcttcagACAATGATGAAGATCATGGGAAAGATAATCAGGACACAATGAAGCCAGTAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGCGATAGGGATTCATCATCGGAGTCTGATCGGTCTCACCAAGAAGCATCAGCAGCAAGTGAAAGCAGTCCAAATGAACACACATCAACTCAATCAGgtacttctttatctccaaccacattatcagttatatatatttttacaccgttggcattggaacacagcttcattttaagtttacttcacaagaaatgtta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG